5WYR

Crystal structure and catalytic mechanism of the essential m1G37 tRNA methyltransferase TrmD from Pseudomonas aeruginosa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure and catalytic mechanism of the essential m1G37 tRNA methyltransferase TrmD from Pseudomonas aeruginosa

Jaroensuk, J.Liew, C.W.Atichartpongkul, S.Chionh, Y.H.Wong, Y.H.Zhong, W.H.McBee, M.E.Thongdee, N.Prestwich, E.G.DeMott, M.S.Mongkolsuk, S.Dedon, P.C.Lescar, J.Fuangthong, M.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
tRNA (guanine-N(1)-)-methyltransferase
A, B
248Pseudomonas aeruginosa (strain UCBPP-PA14)Mutation(s): 0 
Gene Names: trmD
EC: 2.1.1.228
Find proteins for Q02RL6 (Pseudomonas aeruginosa (strain UCBPP-PA14))
Go to UniProtKB:  Q02RL6
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SFG
Query on SFG

Download SDF File 
Download CCD File 
A, B
SINEFUNGIN
ADENOSYL-ORNITHINE
C15 H23 N7 O5
LMXOHSDXUQEUSF-YECHIGJVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.191 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 85.290α = 90.00
b = 85.290β = 90.00
c = 147.120γ = 120.00
Software Package:
Software NamePurpose
BUSTERrefinement
SCALAdata scaling
MOSFLMdata reduction
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-12-20
    Type: Initial release
  • Version 1.1: 2019-07-03
    Type: Data collection, Database references